RNAmodR
This is thereleased version of RNAmodR; for the devel version, seeRNAmodR.
Detection of post-transcriptional modifications in high throughput sequencing data
Bioconductor version: Release (3.22)
RNAmodR provides classes and workflows for loading/aggregation data from high througput sequencing aimed at detecting post-transcriptional modifications through analysis of specific patterns. In addition, utilities are provided to validate and visualize the results. The RNAmodR package provides a core functionality from which specific analysis strategies can be easily implemented as a seperate package.
Author: Felix G.M. Ernst [aut, cre]
ORCID: 0000-0001-5064-0928, Denis L.J. Lafontaine [ctb, fnd]
Maintainer: Felix G.M. Ernst <felix.gm.ernst at outlook.com>
citation("RNAmodR")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("RNAmodR")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RNAmodR")| RNAmodR | HTML | R Script |
| RNAmodR - creating new classes for a new detection strategy | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Infrastructure,Sequencing,Software,Visualization,WorkflowStep |
| Version | 1.24.0 |
| In Bioconductor since | BioC 3.10 (R-3.6) (6 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.0),S4Vectors(>= 0.27.12),IRanges(>= 2.23.9),GenomicRanges,Modstrings |
| Imports | methods, stats, grDevices,matrixStats,BiocGenerics,Biostrings(>= 2.57.2),BiocParallel,txdbmaker,GenomicFeatures,GenomicAlignments,Seqinfo,rtracklayer,Rsamtools,BSgenome,RColorBrewer,colorRamps,ggplot2,Gviz(>= 1.31.0),reshape2, graphics,ROCR |
| System Requirements | |
| URL | https://github.com/FelixErnst/RNAmodR |
| Bug Reports | https://github.com/FelixErnst/RNAmodR/issues |
See More
| Suggests | BiocStyle,knitr,rmarkdown,testthat,RNAmodR.Data |
| Linking To | |
| Enhances | |
| Depends On Me | RNAmodR.AlkAnilineSeq,RNAmodR.ML,RNAmodR.RiboMethSeq |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | RNAmodR_1.24.0.tar.gz |
| Windows Binary (x86_64) | RNAmodR_1.24.0.zip |
| macOS Binary (x86_64) | RNAmodR_1.24.0.tgz |
| macOS Binary (arm64) | RNAmodR_1.24.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/RNAmodR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RNAmodR |
| Bioc Package Browser | https://code.bioconductor.org/browse/RNAmodR/ |
| Package Short Url | https://bioconductor.org/packages/RNAmodR/ |
| Package Downloads Report | Download Stats |